Development of T cell receptor repertoires during childhood in health and disease

By Emma A., Bunia A., Othilia FS., Tobias C. & Joanna R.

Group 21

Introduction

Data Description

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Materials: What data did you use and where did you get it from? Methods: Which modelling did you use? Think of the methods section as a recipe for how to go from raw to results => Flow chart? Discuss how data was collected or generated for your study. Include any relevant details or procedures.

Original data (01_dat_load.tsv)

# A tibble: 10 × 2
   sample_name sample_tags                                                      
   <chr>       <chr>                                                            
 1 310183_TCRB 06 Years, 6 Years at visit, Caucasian, Control, Control 022, GAD…
 2 310110_TCRB 0 Years at visit, 09 Months, 6.37808219178082 Years at diagnosis…
 3 310206_TCRB 0 Years at visit, 10 Months, 10.558904109589 Years at diagnosis,…
 4 310288_TCRB 09 Years, 9 Years at visit, 9.56986301369863 Years at diagnosis,…
 5 310271_TCRB 02 Years, 2 Years at visit, 6.87397260273973 Years at diagnosis,…
 6 310244_TCRB 05 Years, 18.0438356164384 Years at diagnosis, 5 Years at visit,…
 7 310137_TCRB 07 Years, 7 Years at visit, Caucasian, Control, Control 014, Fem…
 8 310258_TCRB 12 Years, 12 Years at visit, 12.958904109589 Years at diagnosis,…
 9 310127_TCRB 04 Years, 11.6821917808219 Years at diagnosis, 4 Years at visit,…
10 310300_TCRB 17 Years, 17 Years at visit, 17.7561643835616 Years at diagnosis…

Data Wrangling

Augmented data (03_dat_aug.tsv)

# A tibble: 13,824 × 23
   sample_name total_templates productive_templates fraction_productive
   <chr>                 <dbl>                <dbl>               <dbl>
 1 310102_TCRB          121173                96410               0.796
 2 310102_TCRB          121173                96410               0.796
 3 310102_TCRB          121173                96410               0.796
 4 310102_TCRB          121173                96410               0.796
 5 310102_TCRB          121173                96410               0.796
 6 310102_TCRB          121173                96410               0.796
 7 310102_TCRB          121173                96410               0.796
 8 310102_TCRB          121173                96410               0.796
 9 310102_TCRB          121173                96410               0.796
10 310102_TCRB          121173                96410               0.796
# ℹ 13,814 more rows
# ℹ 19 more variables: total_rearrangements <dbl>,
#   productive_rearrangements <dbl>, productive_simpson_clonality <dbl>,
#   max_productive_frequency <dbl>, locus <chr>, sku <chr>, case_control <chr>,
#   id <dbl>, timepoint <dbl>, gender <chr>, ethnicity <chr>, race <chr>,
#   age <dbl>, age_diagnosis <dbl>, age_visit <dbl>, antibody <chr>,
#   expression <dbl>, allele <chr>, subtype <chr>
x
10
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Original data (01_dat_load.tsv)

Data Wrangling

Augmented data (03_dat_aug.tsv)

# A tibble: 13,824 × 24
   sample_name total_templates productive_templates fraction_productive
   <chr>                 <dbl>                <dbl>               <dbl>
 1 310102_TCRB          121173                96410               0.796
 2 310102_TCRB          121173                96410               0.796
 3 310102_TCRB          121173                96410               0.796
 4 310102_TCRB          121173                96410               0.796
 5 310102_TCRB          121173                96410               0.796
 6 310102_TCRB          121173                96410               0.796
 7 310102_TCRB          121173                96410               0.796
 8 310102_TCRB          121173                96410               0.796
 9 310102_TCRB          121173                96410               0.796
10 310102_TCRB          121173                96410               0.796
# ℹ 13,814 more rows
# ℹ 20 more variables: total_rearrangements <dbl>,
#   productive_rearrangements <dbl>, productive_simpson_clonality <dbl>,
#   max_productive_frequency <dbl>, locus <chr>, sku <chr>, test_name <chr>,
#   case_control <chr>, id <dbl>, timepoint <dbl>, gender <chr>,
#   ethnicity <chr>, race <chr>, age <dbl>, age_diagnosis <dbl>,
#   age_visit <dbl>, antibody <chr>, expression <dbl>, allele <chr>, …
>>>>>>> 762fa209f8f47190ad0f61183d2a2cc8f349019e

Antibody Expression

Antibody Expression, PCA

HLA Expression

HLA Expression, PCA

Discussion

Discuss the implications of your findings. Interpret the results and relate them to your objectives.

  • ZnT8 for control patients …
  • Missing values for control patients

Conclusion

Summarize the main points discussed in the presentation. Emphasize the significance of your work and any future directions.

  • Something …
  • Something else … THANK YOU for listening!